From 40fde8432dd002e1f208fef03996b3031836a1d4 Mon Sep 17 00:00:00 2001 From: mcarans Date: Fri, 12 Jun 2026 10:29:18 +1200 Subject: [PATCH] save_hxlated_output and Download.hxl_row removed. Parameter use_hxl removed from all calls in Download and Retrieve. --- .pre-commit-config.yaml | 2 +- CLAUDE.md | 81 +++++++++ README.md | 1 - documentation/index.md | 94 +--------- pyproject.toml | 6 +- src/hdx/utilities/base_downloader.py | 4 - src/hdx/utilities/downloader.py | 54 ------ src/hdx/utilities/path.py | 33 ++-- src/hdx/utilities/retriever.py | 8 +- src/hdx/utilities/saver.py | 139 --------------- tests/fixtures/config/json_csv.yaml | 108 ------------ tests/fixtures/retriever/test_hxl.csv | 4 - tests/hdx/utilities/test_downloader.py | 12 -- tests/hdx/utilities/test_retriever.py | 16 -- tests/hdx/utilities/test_saver.py | 152 +--------------- tests/hdx/utilities/test_text.py | 2 +- uv.lock | 230 ++++++++++++++----------- 17 files changed, 233 insertions(+), 713 deletions(-) create mode 100644 CLAUDE.md delete mode 100644 tests/fixtures/config/json_csv.yaml delete mode 100755 tests/fixtures/retriever/test_hxl.csv diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 7eff2a4..bf9ac1c 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -1,5 +1,5 @@ default_language_version: - python: python3.13 + python: python3 repos: - repo: https://github.com/pre-commit/pre-commit-hooks diff --git a/CLAUDE.md b/CLAUDE.md new file mode 100644 index 0000000..72c38ec --- /dev/null +++ b/CLAUDE.md @@ -0,0 +1,81 @@ +# CLAUDE.md + +This file provides guidance to Claude Code (claude.ai/code) when working with code in this repository. + +## Project Overview + +**hdx-python-utilities** is a general-purpose Python utility library (not HDX-specific) providing helpers for: downloading files, retrieving tabular data (CSV/JSON/XLSX), date parsing, JSON/YAML I/O, dict/list manipulation, HTML parsing, file hashing, text processing, error handling, and more. + +## Commands + +```bash +# Install dependencies +uv sync + +# Run all tests with coverage +uv run pytest + +# Run a single test file +uv run pytest tests/hdx/utilities/test_downloader.py + +# Run a single test by name +uv run pytest tests/hdx/utilities/test_downloader.py -k "test_download_file" + +# Lint and format +uv run ruff check +pre-commit run --all-files + +# Build +uv build +``` + +Coverage is written to `coverage.lcov` and JUnit XML to `test-results.xml`. + +## Source Layout + +All source lives under `src/hdx/utilities/`. Tests mirror the layout under `tests/hdx/utilities/` with fixtures in `tests/fixtures/`. + +Key modules: +- `base_downloader.py` — `BaseDownload` ABC defining the interface (`download_file`, `download_tabular_rows`, etc.) and `DownloadError` +- `downloader.py` — `Download(BaseDownload)`: HTTP downloading via `requests` + `frictionless` for tabular parsing; supports auth (basic, bearer, extra params), rate limiting, retries, and streaming rows +- `retriever.py` — `Retrieve(BaseDownload)`: wraps a `Download`, adding save/load-from-disk and static fallback directories; registered instances in `Retrieve.retrievers` dict +- `session.py` — `get_session()` builds a `requests.Session` with retry logic and auth headers +- `frictionless_wrapper.py` — thin wrapper around `frictionless.TableResource` for tabular reads +- `loader.py` / `saver.py` — JSON and YAML I/O (YAML uses `ruamel.yaml` to preserve order/comments) +- `dateparse.py` — date/time parsing and timezone utilities +- `dictandlist.py` — dict/list helpers (merge, flatten, key renaming, etc.) +- `path.py` — `script_dir()`, temp dir helpers, `NotFoundError` +- `error_handler.py` / `errors_onexit.py` — structured error accumulation and on-exit reporting +- `text.py` — text processing including `smart_split` +- `matching.py` — fuzzy/phonetic matching utilities +- `state.py` — lightweight on-disk state persistence +- `useragent.py` — user-agent string construction (reads `~/.useragent.yaml` by default) + +## Key Patterns + +**Download / Retrieve layering** — `Download` handles raw HTTP; `Retrieve` adds a save/use_saved/fallback layer on top. Callers typically use `Retrieve` rather than `Download` directly. Both implement `BaseDownload` so they're interchangeable. + +**Tabular row iteration** — `download_tabular_rows()` (on both `Download` and `Retrieve`) yields dicts via `frictionless.TableResource`. The `frictionless_wrapper.py` module handles the `FrictionlessException` boundary. Supports CSV, JSON, XLSX, and XLS. + +**User-agent requirement** — `Download` requires a user agent. Either set a global user agent via `UserAgent.set_global(...)` or pass `user_agent=` directly. Missing user agent raises at construction time. + +**Context manager usage** — `Download` and `Retrieve` are designed as context managers (`with Download(...) as downloader:`). `__exit__` closes the session. + +**Auth precedence** — environment variables `EXTRA_PARAMS`, `BASIC_AUTH`, `BEARER_TOKEN` override constructor arguments. Among constructor args: `auth` > `basic_auth`/`basic_auth_file` > `bearer_token`/`bearer_token_file` > `extra_params_dict` > `extra_params_json`/`extra_params_yaml`. + +## Code Style + +- Python ≥ 3.10; type hints throughout using `X | Y` union syntax (PEP 604) +- Google-style docstrings with `Args:` and `Returns:` sections +- Formatted and linted with `ruff` (rules: E, F, I, UP; E501 ignored) +- No inline comments unless the *why* is non-obvious + +## Collaboration Style + +- Be objective, not agreeable. Push back when you disagree, flag tradeoffs honestly. +- Keep explanations brief and to the point. +- Don't rely on recalled knowledge for facts that could be stale. Read the actual source first. + +## Scope of Changes + +When fixing a bug or addressing PR feedback, change only what is necessary to resolve the specific issue. Do not refactor surrounding code, rename variables, adjust formatting, or make improvements in the same commit unless they are directly required by the fix. diff --git a/README.md b/README.md index 45204fe..c1f8c3c 100755 --- a/README.md +++ b/README.md @@ -10,7 +10,6 @@ Note that these are not specific to HDX. 1. Retrieval of data from url with saving to file or from data previously saved 1. Date utilities 1. Loading and saving JSON and YAML (maintaining order) -1. Loading and saving HXLated csv and/or JSON 1. Dictionary and list utilities 1. HTML utilities (inc. BeautifulSoup helper) 1. Compare files (eg. for testing) diff --git a/documentation/index.md b/documentation/index.md index af6b54c..94646af 100644 --- a/documentation/index.md +++ b/documentation/index.md @@ -9,7 +9,6 @@ Python developers. Note that these are not specific to HDX. 1. [Retrieval of data from url with saving to file or from data previously saved](#retrieving-files) 1. [Date utilities](#date-utilities) 1. [Loading and saving JSON and YAML (maintaining order)](#loading-and-saving-json-and-yaml) -1. [Loading and saving HXLated csv and/or JSON](#loading-and-saving-hxlated-csv-andor-json) 1. [Dictionary and list utilities](#dictionary-and-list-utilities) 1. [HTML utilities (inc. BeautifulSoup helper)](#html-utilities) 1. [Compare files (eg. for testing)](#comparing-files) @@ -34,6 +33,9 @@ The code for the library is [here](https://github.com/OCHA-DAP/hdx-python-utilit The library has detailed API documentation which can be found in the menu at the top. ## Breaking Changes +From 4.1.0, save_hxlated_output and Download.hxl_row removed. Parameter use_hxl removed +from all calls in Download and Retrieve. + From 4.0.4, get_filename_from_url, get_filename_extension_from_url, get_path_for_url, get_url_for_get, get_url_params_for_post moved to module url @@ -185,9 +187,6 @@ Other useful functions: headers, iterator = downloader.get_tabular_rows_as_list(url) for row in iterator: ... - # Get hxl row - assert Download.hxl_row(["a", "b", "c"], {"b": "#b", "c": "#c"}, dict_form=True) - # == {"a": "", "b": "#b", "c": "#c"} # Build get url from url and dictionary of parameters Download.get_url_for_get("http://www.lala.com/hdfa?a=3&b=4", OrderedDict([("c", "e"), ("d", "f")])) @@ -461,93 +460,6 @@ as a csv or Excel. save_iterable(xlfilepath, list_of_lists, headers=["h1", "h2", "h3", "h4"], format="xlsx") -## Loading and saving HXLated csv and/or JSON - -`save_hxlated_output` is a utility to save HXLated output (currently JSON and/or csv are -supported) based on a given configuration. Here is an example YAML configuration: - - input: - headers: - - "Col1" - - "Col2" - - "Col3" - hxltags: - - "#tag1" - - "#tag2" - - "#tag3" - process: - - header: "tag4" - hxltag: "#tag4" - expression: "#tag1 * 10" - output: - csv: - filename: "out.csv" - hxltags: - - "#tag2" - - "#tag3" - json: - filename: "out.json" - data: "results" - metadata: - "#date": "{{today}}" - "#mytag": 123 - hxltags: - - "#tag1" - - "#tag2" - -The `input` section is needed if the rows of data that are passed in are missing either -headers or HXL hashtags. The `output` section defines what files will be created. If -`hxltags` are specified, then only those columns are output. CSV output would look like -this: - - Col2,Col3,tag4 - #tag2,#tag3,#tag4 - 2,3,10 - 5,6,40 - - -For JSON output, if no `metadata` or `data` is specified, the output will look like -this: - - [ - {"#tag1":1,"#tag2":"2","#tag4":10}, - {"#tag1":4,"#tag2":"5","#tag4":40} - ] - -If only `metadata` was specified, not `data`, then output is like this: - - {"metadata":{"#date":"today!","#mytag":123},"data":[ - {"#tag1":1,"#tag2":"2","#tag4":10}, - {"#tag1":4,"#tag2":"5","#tag4":40} - ]} - -Otherwise, the result is like this: - - {"metadata":{"#date":"today!","#mytag":123},"results":[ - {"#tag1":1,"#tag2":"2","#tag4":10}, - {"#tag1":4,"#tag2":"5","#tag4":40} - ]} - -The utility is called as follows: - - save_hxlated_output( - configuration, - rows, - includes_header=True, - includes_hxltags=True, - output_dir=output_dir, - today="today!", - ) - -The first parameter is the configuration which can come from a YAML file for example. -The second parameter, `rows` is the data. That data can be a list of lists, tuples or -dictionaries. If `includes_header` is `True`, headers are taken from `rows`, otherwise -they must be given by the configuration. If `includes_hxltags` is `True`, HXL hashtags -are taken from `rows`, otherwise they must be given by the configuration. `output_dir` -specifies where the output should go and defaults to "". Any other parameters (such as -`today` in the example above) are used to populate template variables given in the -configuration for the metadata. - ## Dictionary and list utilities Examples: diff --git a/pyproject.toml b/pyproject.toml index 5f4d65f..394aaa8 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -39,14 +39,14 @@ requires-python = ">=3.10" # Extras for frictionless[excel,json] added explicitly # for conda-forge compatibility dependencies = [ - "frictionless>=5.18.0", + "frictionless>=5.19.0", # frictionless[excel] "openpyxl>=3.1.2", "tableschema-to-template>=0.0.13", "xlrd>=2.0.1", "xlwt>=1.3.0", # frictionless[json] - "ijson>=3.2.3", + "ijson>=3.5.0", "jsonlines>=4.0.0", # /end frictionless extras "typing_extensions", @@ -56,7 +56,7 @@ dependencies = [ "ratelimit", "requests-file", "ruamel.yaml", - "xlsx2csv", + "xlsx2csv==0.8.4", ] [project.optional-dependencies] diff --git a/src/hdx/utilities/base_downloader.py b/src/hdx/utilities/base_downloader.py index 51f9c26..fd9cc4f 100644 --- a/src/hdx/utilities/base_downloader.py +++ b/src/hdx/utilities/base_downloader.py @@ -90,7 +90,6 @@ def download_json(self, url: Path | str, *args: Any, **kwargs: Any) -> Any: def get_tabular_rows( self, url: Path | str | Sequence[str], - has_hxl: bool = False, headers: int | Sequence[int] | Sequence[str] = 1, dict_form: bool = False, *args: Any, @@ -100,8 +99,6 @@ def get_tabular_rows( where each row is returned as a list or dictionary depending on the dict_rows argument. - When a list of urls is supplied (in url), then the has_hxl flag indicates if the - files are HXLated so that the HXL row is only included from the first file. The headers argument is either a row number or list of row numbers (in case of multi-line headers) to be considered as headers (rows start counting at 1), or the actual headers defined as a list of strings. It defaults to 1. @@ -110,7 +107,6 @@ def get_tabular_rows( Args: url: A single or list of URLs or paths to read from - has_hxl: Whether files have HXL hashtags. Ignored for single url. Defaults to False. headers: Number of row(s) containing headers or list of headers. Defaults to 1. dict_form: Return dict or list for each row. Defaults to False (list) *args (Any): Positional arguments diff --git a/src/hdx/utilities/downloader.py b/src/hdx/utilities/downloader.py index 3e3da5a..54224ca 100755 --- a/src/hdx/utilities/downloader.py +++ b/src/hdx/utilities/downloader.py @@ -142,28 +142,6 @@ def get_full_url(self, url: Path | str) -> str: preparedrequest = self.session.prepare_request(request) return preparedrequest.url - @staticmethod - def hxl_row( - headers: Sequence[str], - hxltags: dict[str, str], - dict_form: bool = False, - ) -> list[str] | dict[str, str]: - """Return HXL tag row for header row given list of headers and - dictionary with header to HXL hashtag mappings. Return list or - dictionary depending upon the dict_form argument. - - Args: - headers: Headers for which to get HXL hashtags - hxltags: Header to HXL hashtag mapping - dict_form: Return dict or list. Defaults to False (list) - - Returns: - Return either a list or dictionary conating HXL hashtags - """ - if dict_form: - return {header: hxltags.get(header, "") for header in headers} - return [hxltags.get(header, "") for header in headers] - def normal_setup( self, url: Path | str, @@ -674,7 +652,6 @@ def get_next(): def get_tabular_rows( self, url: Path | str | Sequence[str], - has_hxl: bool = False, headers: int | Sequence[int] | Sequence[str] = 1, dict_form: bool = False, include_headers: bool = False, @@ -688,8 +665,6 @@ def get_tabular_rows( where each row is returned as a list or dictionary depending on the dict_rows argument. - When a list of urls is supplied (in url), then the has_hxl flag indicates if the - files are HXLated so that the HXL row is only included from the first file. The headers argument is either a row number or list of row numbers (in case of multi-line headers) to be considered as headers (rows start counting at 1), or the actual headers defined as a list of strings. It defaults to 1. The dict_form @@ -705,7 +680,6 @@ def get_tabular_rows( Args: url: A single or list of URLs or paths to read from - has_hxl: Whether files have HXL hashtags. Ignored for single url. Defaults to False. headers: Number of row(s) containing headers or list of headers. Defaults to 1. dict_form: Return dict or list for each row. Defaults to False (list) include_headers: Whether to include headers in iterator. Defaults to False. @@ -772,8 +746,6 @@ def make_iterator(): row_function, **temp_kwargs, ) - if has_hxl: - next(iterator) yield from iterator return outheaders, make_iterator() @@ -781,7 +753,6 @@ def make_iterator(): def get_tabular_rows_as_list( self, url: Path | str | Sequence[str], - has_hxl: bool = False, headers: int | Sequence[int] | Sequence[str] = 1, include_headers: bool = True, ignore_blank_rows: bool = True, @@ -793,8 +764,6 @@ def get_tabular_rows_as_list( """Returns headers and an iterator where each row is returned as a list. - When a list of urls is supplied (in url), then the has_hxl flag indicates if the - files are HXLated so that the HXL row is only included from the first file. The headers argument is either a row number or list of row numbers (in case of multi-line headers) to be considered as headers (rows start counting at 1), or the actual headers defined as a list of strings. It defaults to 1 and cannot be @@ -809,7 +778,6 @@ def get_tabular_rows_as_list( Args: url: A single or list of URLs or paths to read from - has_hxl: Whether files have HXL hashtags. Ignored for single url. Defaults to False. headers: Number of row(s) containing headers or list of headers. Defaults to 1. include_headers: Whether to include headers in iterator. Defaults to True. ignore_blank_rows: Whether to ignore blank rows. Defaults to True. @@ -842,7 +810,6 @@ def get_tabular_rows_as_list( headers, iterator = self.get_tabular_rows( url, - has_hxl, headers, False, include_headers, @@ -857,7 +824,6 @@ def get_tabular_rows_as_list( def get_tabular_rows_as_dict( self, url: Path | str | Sequence[str], - has_hxl: bool = False, headers: int | Sequence[int] | Sequence[str] = 1, ignore_blank_rows: bool = True, infer_types: bool = False, @@ -868,8 +834,6 @@ def get_tabular_rows_as_dict( """Returns headers and an iterator where each row is returned as a dictionary. - When a list of urls is supplied (in url), then the has_hxl flag indicates if the - files are HXLated so that the HXL row is only included from the first file. The headers argument is either a row number or list of row numbers (in case of multi-line headers) to be considered as headers (rows start counting at 1), or the actual headers defined as a list of strings. It defaults to 1 and cannot be @@ -884,7 +848,6 @@ def get_tabular_rows_as_dict( Args: url: A single or list of URLs or paths to read from - has_hxl: Whether files have HXL hashtags. Ignored for single url. Defaults to False. headers: Number of row(s) containing headers or list of headers. Defaults to 1. ignore_blank_rows: Whether to ignore blank rows. Defaults to True. infer_types: Whether to infer types. Defaults to False (strings). @@ -916,7 +879,6 @@ def get_tabular_rows_as_dict( headers, iterator = self.get_tabular_rows( url, - has_hxl, headers, True, False, @@ -931,7 +893,6 @@ def get_tabular_rows_as_dict( def download_tabular_key_value( self, url: Path | str | Sequence[str], - has_hxl: bool = False, headers: int | Sequence[int] | Sequence[str] = 1, include_headers: bool = True, ignore_blank_rows: bool = True, @@ -943,8 +904,6 @@ def download_tabular_key_value( """Download 2 column csv from url and return a dictionary of keys (first column) and values (second column). - When a list of urls is supplied (in url), then the has_hxl flag indicates if the - files are HXLated so that the HXL row is only included from the first file. The headers argument is either a row number or list of row numbers (in case of multi-line headers) to be considered as headers (rows start counting at 1), or the actual headers defined as a list of strings. It defaults to 1 and cannot be @@ -957,10 +916,8 @@ def download_tabular_key_value( and row (which will be in dict or list form depending upon the dict_rows argument) and outputs a modified row or None to ignore the row. - Args: url: A single or list of URLs or paths to read from - has_hxl: Whether files have HXL hashtags. Ignored for single url. Defaults to False. headers: Number of row(s) containing headers or list of headers. Defaults to 1. include_headers: Whether to include headers in iterator. Defaults to True. ignore_blank_rows: Whether to ignore blank rows. Defaults to True. @@ -993,7 +950,6 @@ def download_tabular_key_value( output_dict = {} _, rows = self.get_tabular_rows_as_list( url, - has_hxl, headers, include_headers, ignore_blank_rows, @@ -1011,7 +967,6 @@ def download_tabular_key_value( def download_tabular_rows_as_dicts( self, url: Path | str | Sequence[str], - has_hxl: bool = False, headers: int | Sequence[int] | Sequence[str] = 1, keycolumn: int = 1, ignore_blank_rows: bool = True, @@ -1024,8 +979,6 @@ def download_tabular_rows_as_dicts( are first column and values are dictionaries with keys from column headers and values from columns beneath. - When a list of urls is supplied (in url), then the has_hxl flag indicates if the - files are HXLated so that the HXL row is only included from the first file. The headers argument is either a row number or list of row numbers (in case of multi-line headers) to be considered as headers (rows start counting at 1), or the actual headers defined as a list of strings. It defaults to 1 and cannot be @@ -1040,7 +993,6 @@ def download_tabular_rows_as_dicts( Args: url: A single or list of URLs or paths to read from - has_hxl: Whether files have HXL hashtags. Ignored for single url. Defaults to False. headers: Number of row(s) containing headers or list of headers. Defaults to 1. keycolumn: Number of column to be used for key. Defaults to 1. ignore_blank_rows: Whether to ignore blank rows. Defaults to True. @@ -1073,7 +1025,6 @@ def download_tabular_rows_as_dicts( """ headers, iterator = self.get_tabular_rows_as_dict( url, - has_hxl, headers, ignore_blank_rows, infer_types, @@ -1095,7 +1046,6 @@ def download_tabular_rows_as_dicts( def download_tabular_cols_as_dicts( self, url: Path | str | Sequence[str], - has_hxl: bool = False, headers: int | Sequence[int] | Sequence[str] = 1, keycolumn: int = 1, ignore_blank_rows: bool = True, @@ -1108,8 +1058,6 @@ def download_tabular_cols_as_dicts( are header names and values are dictionaries with keys from first column and values from other columns. - When a list of urls is supplied (in url), then the has_hxl flag indicates if the - files are HXLated so that the HXL row is only included from the first file. The headers argument is either a row number or list of row numbers (in case of multi-line headers) to be considered as headers (rows start counting at 1), or the actual headers defined as a list of strings. It defaults to 1 and cannot be @@ -1124,7 +1072,6 @@ def download_tabular_cols_as_dicts( Args: url: A single or list of URLs or paths to read from - has_hxl: Whether files have HXL hashtags. Ignored for single url. Defaults to False. headers: Number of row(s) containing headers or list of headers. Defaults to 1. keycolumn: Number of column to be used for key. Defaults to 1. ignore_blank_rows: Whether to ignore blank rows. Defaults to True. @@ -1157,7 +1104,6 @@ def download_tabular_cols_as_dicts( """ headers, iterator = self.get_tabular_rows_as_dict( url, - has_hxl, headers, ignore_blank_rows, infer_types, diff --git a/src/hdx/utilities/path.py b/src/hdx/utilities/path.py index b9c15ca..a88f2fe 100755 --- a/src/hdx/utilities/path.py +++ b/src/hdx/utilities/path.py @@ -1,7 +1,6 @@ """Directory Path Utilities.""" import contextlib -import inspect import logging import sys from collections.abc import Iterable, Iterator, Sequence @@ -12,7 +11,6 @@ from pathlib import Path from shutil import rmtree from tempfile import gettempdir -from typing import Any from hdx.utilities.loader import load_text from hdx.utilities.saver import save_text @@ -25,45 +23,34 @@ class NotFoundError(Exception): pass -def script_dir(pyobject: Any, follow_symlinks: bool = True) -> Path: +def script_dir(*args, **kwargs) -> Path: """Get current script's directory. - Args: - pyobject: Any Python object in the script - follow_symlinks: Follow symlinks or not. Defaults to True. - Returns: Current script's directory """ if getattr(sys, "frozen", False): - # Frozen (PyInstaller, etc.): Use the executable path - path = Path(sys.executable) # pragma: no cover + # PyInstaller bundle + app_path = Path(sys.executable) else: - # Standard: Use the object's file path - path = Path(inspect.getfile(pyobject)) - - # Resolve symlinks if requested, otherwise just make absolute - path = path.resolve() if follow_symlinks else path.absolute() + # Standard Python script + app_path = Path(__file__) - return path.parent + # .resolve() ensures we follow symlinks to the real folder, + # and makes the path absolute so CWD doesn't matter. + return app_path.resolve().parent -def script_dir_plus_file( - filename: str, pyobject: Any, follow_symlinks: bool = True -) -> Path: +def script_dir_plus_file(filename: str, *args, **kwargs) -> Path: """Get current script's directory and then append a filename. Args: filename: Filename to append to directory path - pyobject: Any Python object in the script - return_path: Whether to return a Path object. Defaults to returning str. - - follow_symlinks: Follow symlinks or not. Defaults to True. Returns: Current script's directory and with filename appended """ - return script_dir(pyobject, follow_symlinks) / filename + return script_dir() / filename def get_temp_dir( diff --git a/src/hdx/utilities/retriever.py b/src/hdx/utilities/retriever.py index 6260011..7189ceb 100644 --- a/src/hdx/utilities/retriever.py +++ b/src/hdx/utilities/retriever.py @@ -385,7 +385,6 @@ def download_json( def get_tabular_rows( self, url: Path | str | Sequence[str], - has_hxl: bool = False, headers: int | Sequence[int] | Sequence[str] = 1, dict_form: bool = False, filename: str | None = None, @@ -397,8 +396,6 @@ def get_tabular_rows( where each row is returned as a list or dictionary depending on the dict_rows argument. - When a list of urls is supplied (in url), then the has_hxl flag indicates if the - files are HXLated so that the HXL row is only included from the first file. The headers argument is either a row number or list of row numbers (in case of multi-line headers) to be considered as headers (rows start counting at 1), or the actual headers defined as a list of strings. It defaults to 1. @@ -407,7 +404,6 @@ def get_tabular_rows( Args: url: A single or list of URLs or paths to read from - has_hxl: Whether files have HXL hashtags. Defaults to False. headers: Number of row(s) containing headers or list of headers. Defaults to 1. dict_form: Return dict or list for each row. Defaults to False (list) filename: Filename of saved file. Defaults to getting from url. @@ -434,9 +430,7 @@ def get_tabular_rows( path.append(pth) kwargs.pop("file_prefix", None) - return self.downloader.get_tabular_rows( - path, has_hxl, headers, dict_form, **kwargs - ) + return self.downloader.get_tabular_rows(path, headers, dict_form, **kwargs) @classmethod def generate_retrievers( diff --git a/src/hdx/utilities/saver.py b/src/hdx/utilities/saver.py index fd20984..b8887c5 100644 --- a/src/hdx/utilities/saver.py +++ b/src/hdx/utilities/saver.py @@ -1,6 +1,5 @@ """Saving utilities for YAML, JSON etc.""" -import csv import json from collections import OrderedDict from collections.abc import Callable, Iterable, Mapping, Sequence @@ -15,7 +14,6 @@ ) from hdx.utilities.frictionless_wrapper import get_frictionless_tableresource -from hdx.utilities.matching import match_template_variables class UnPrettyRTRepresenter(RoundTripRepresenter): @@ -134,143 +132,6 @@ def save_json( ) -def save_hxlated_output( - configuration: dict, - rows: Sequence[Sequence | Mapping], - includes_header: bool = True, - includes_hxltags: bool = False, - output_dir: Path | str = "", - **kwargs: Any, -) -> None: - """Save rows with header and HXL hashtags. Currently, JSON and/or csv - outputs are supported. An output directory (which defaults to "") can be - given. The utility expects a configuration containing definitions of input - headers and HXLtags if these are not included in the rows, and output files - with desired HXL hashtags. Keyword arguments are used to pass in any - variables needed by the metadata defined in the configuration. - - Args: - configuration: Configuration for input and output - rows: Rows of data - includes_header: Whether rows includes header. Defaults to True, - includes_hxltags: Whether rows includes HXL hashtags. Defaults to False. - output_dir: Output directory. Defaults to "". - **kwargs: Variables to use when evaluating template arguments - - Returns: - None - """ - output_dir = Path(output_dir) - row0 = rows[0] - if includes_header: - if isinstance(row0, dict): - headers = list(row0.keys()) - else: - headers = rows[0] - rows = rows[1:] - else: - headers = configuration["input"]["headers"] - if includes_hxltags: - if isinstance(row0, dict): - hxltags = list(row0.values()) - rows = rows[1:] - else: - hxltags = rows[0] - rows = rows[1:] - else: - hxltags = configuration["input"]["hxltags"] - expressions = {} - for process in configuration.get("process", []): - headers.append(process["header"]) - hxltag = process["hxltag"] - hxltags.append(hxltag) - expressions[hxltag] = process["expression"] - - hxltag_to_header = dict(zip(hxltags, headers)) - csv_configuration = configuration["output"].get("csv") - if csv_configuration: - csv_hxltags = csv_configuration.get("hxltags", hxltags) - csv_headers = [hxltag_to_header[hxltag] for hxltag in csv_hxltags] - csv_file = (output_dir / csv_configuration["filename"]).open( - "w", - encoding="utf-8", - newline="\n", - ) - output_csv = csv.writer(csv_file) - output_csv.writerow(csv_headers) - output_csv.writerow(csv_hxltags) - else: - csv_file = None - output_csv = None - json_configuration = configuration["output"].get("json") - if json_configuration: - data_key = json_configuration.get("data") - json_hxltags = json_configuration.get("hxltags", hxltags) - metadata_configuration = json_configuration.get("metadata") - if metadata_configuration: - metadata = {} - for metadata_name, value in metadata_configuration.items(): - if isinstance(value, str): - template_string, match_string = match_template_variables(value) - if template_string: - value = kwargs.get(match_string) - if value is None: - continue - metadata[metadata_name] = value - metadata_json = json.dumps(metadata, indent=None, separators=(",", ":")) - else: - metadata_json = None - - output_json = (output_dir / json_configuration["filename"]).open("w") - - if metadata_json: - metadata_key = metadata_configuration.get("key", "metadata") - if data_key is None: - data_key = "data" - output_string = f'{{"{metadata_key}":{metadata_json},"{data_key}":[\n' - elif data_key is None: - output_string = "[\n" - else: - output_string = f'{{"{data_key}":[\n' - output_json.write(output_string) - else: - output_json = None - data_key = None - - def write_row(inrow, ending): - if isinstance(inrow, dict): - inrow = list(inrow.values()) - - def get_outrow(file_hxltags): - outrow = {} - for file_hxltag in file_hxltags: - expression = expressions.get(file_hxltag) - if expression: - for i, hxltag in enumerate(hxltags): - expression = expression.replace(hxltag, f"inrow[{i}]") - outrow[file_hxltag] = eval(expression) - else: - outrow[file_hxltag] = inrow[hxltags.index(file_hxltag)] - return outrow - - if output_csv: - output_csv.writerow(get_outrow(csv_hxltags).values()) - if output_json: - row = get_outrow(json_hxltags) - output_json.write( - json.dumps(row, indent=None, separators=(",", ":")) + ending - ) - - [write_row(row, ",\n") for row in rows[:-1]] - write_row(rows[-1], "\n]") - if output_json: - if data_key is not None: - output_json.write("}") - output_json.close() - if csv_file: - csv_file.close() - - def save_iterable( filepath: Path | str, rows: Iterable[Sequence | Mapping], diff --git a/tests/fixtures/config/json_csv.yaml b/tests/fixtures/config/json_csv.yaml deleted file mode 100644 index 69428a5..0000000 --- a/tests/fixtures/config/json_csv.yaml +++ /dev/null @@ -1,108 +0,0 @@ -test1: - input: - headers: - - "Col1" - - "Col2" - - "Col3" - hxltags: - - "#tag1" - - "#tag2" - - "#tag3" - output: - csv: - filename: "out.csv" - json: - filename: "out.json" - hxltags: - - "#tag1" - - "#tag3" - -test2: - output: - csv: - filename: "out2.csv" - hxltags: - - "#tag2" - - "#tag3" - json: - filename: "out2.json" - -test3: - output: - csv: - filename: "out3.csv" - -test4: - output: - json: - filename: "out4.json" - -test5: - output: - csv: - filename: "out5.csv" - hxltags: - - "#tag2" - - "#tag3" - json: - filename: "out5.json" - data: "results" - hxltags: - - "#tag1" - - "#tag2" - -test6: - output: - csv: - filename: "out6.csv" - hxltags: - - "#tag2" - - "#tag3" - json: - filename: "out6.json" - data: "results" - metadata: - "#date": "{{today}}" - "#mytag": 123 - hxltags: - - "#tag1" - - "#tag2" - -test7: - output: - csv: - filename: "out7.csv" - hxltags: - - "#tag2" - - "#tag3" - json: - filename: "out7.json" - metadata: - "#date": "{{today}}" - "#mytag": 123 - hxltags: - - "#tag1" - - "#tag2" - -test8: - process: - - header: "tag4" - hxltag: "#tag4" - expression: "#tag1 * 10" - - output: - csv: - filename: "out8.csv" - hxltags: - - "#tag2" - - "#tag3" - - "#tag4" - json: - filename: "out8.json" - metadata: - "#date": "{{today}}" - "#mytag": 123 - hxltags: - - "#tag1" - - "#tag2" - - "#tag4" diff --git a/tests/fixtures/retriever/test_hxl.csv b/tests/fixtures/retriever/test_hxl.csv deleted file mode 100755 index e5642ce..0000000 --- a/tests/fixtures/retriever/test_hxl.csv +++ /dev/null @@ -1,4 +0,0 @@ -header1,header2,header3,header4 -#h1,#h2,#h3,#h4 -coal,3,7.4,'needed' -gas,2,6.5,'n/a' diff --git a/tests/hdx/utilities/test_downloader.py b/tests/hdx/utilities/test_downloader.py index 2e46b21..20766bb 100755 --- a/tests/hdx/utilities/test_downloader.py +++ b/tests/hdx/utilities/test_downloader.py @@ -307,18 +307,6 @@ def test_init(self, monkeypatch, downloaderfolder): Download(extra_params_yaml="NOTEXIST", fail_on_missing_file=False) Download(basic_auth_file="NOTEXIST", fail_on_missing_file=False) - def test_hxl_row(self): - headers = ["a", "b", "c"] - hxltags = {"b": "#b", "c": "#c"} - assert Download.hxl_row(headers, hxltags) == ["", "#b", "#c"] - assert Download.hxl_row(headers, hxltags, dict_form=True) == { - "a": "", - "b": "#b", - "c": "#c", - } - assert Download.hxl_row(headers, dict()) == ["", "", ""] - assert Download.hxl_row([], hxltags) == list() - def test_setup_stream( self, fixtureurl, fixturenotexistsurl, getfixtureurl, postfixtureurl ): diff --git a/tests/hdx/utilities/test_retriever.py b/tests/hdx/utilities/test_retriever.py index a2f363b..87cdace 100755 --- a/tests/hdx/utilities/test_retriever.py +++ b/tests/hdx/utilities/test_retriever.py @@ -283,22 +283,6 @@ def test_get_tabular_rows_multi_url(self, dirs, retrieverfolder, fallback_dir): ["coal", "3", "7.4", "'needed'"], ["gas", "2", "6.5", "'n/a'"], ] - filename = "test_hxl.csv" - url = retrieverfolder / filename - headers, iterator = retriever.get_tabular_rows( - [url, url], - has_hxl=True, - logstr="test file", - fallback=False, - ) - assert headers == ["header1", "header2", "header3", "header4"] - assert list(iterator) == [ - ["#h1", "#h2", "#h3", "#h4"], - ["coal", "3", "7.4", "'needed'"], - ["gas", "2", "6.5", "'n/a'"], - ["coal", "3", "7.4", "'needed'"], - ["gas", "2", "6.5", "'n/a'"], - ] def test_download_save(self, dirs, retrieverfolder, fallback_dir): saved_dir, temp_dir = dirs diff --git a/tests/hdx/utilities/test_saver.py b/tests/hdx/utilities/test_saver.py index 6477e52..ab10474 100755 --- a/tests/hdx/utilities/test_saver.py +++ b/tests/hdx/utilities/test_saver.py @@ -11,9 +11,8 @@ from hdx.utilities.compare import assert_files_same from hdx.utilities.dictandlist import read_list_from_csv -from hdx.utilities.loader import load_yaml from hdx.utilities.path import temp_dir -from hdx.utilities.saver import save_hxlated_output, save_iterable, save_json, save_yaml +from hdx.utilities.saver import save_iterable, save_json, save_yaml class TestLoader: @@ -101,10 +100,6 @@ class TestLoader: def saverfolder(self, fixturesfolder): return fixturesfolder / "saver" - @pytest.fixture(scope="class") - def json_csv_configuration(self, fixturesfolder): - return load_yaml(fixturesfolder / "config" / "json_csv.yaml") - @pytest.mark.parametrize( "filename,pretty,sortkeys", [ @@ -151,151 +146,6 @@ def test_save_json(self, tmp_path, saverfolder, filename, pretty, sortkeys): save_json(dct, test_path, pretty=pretty, sortkeys=sortkeys) assert_files_same(ref_path, test_path) - def test_save_hxlated_output(self, tmp_path, saverfolder, json_csv_configuration): - rows = ( - ("Col1", "Col2", "Col3"), - ("#tag1", "#tag2", "#tag3"), - (1, "2", 3), - (4, "5", 6), - ) - output_dir = tmp_path - - save_hxlated_output( - json_csv_configuration["test1"], - rows[2:], - includes_header=False, - includes_hxltags=False, - output_dir=output_dir, - ) - filename = "out.csv" - assert_files_same(saverfolder / filename, output_dir / filename) - filename = "out.json" - assert_files_same(saverfolder / filename, output_dir / filename) - - row0 = rows[0] - rowsdict = [] - for row in rows[2:]: - newrow = {} - for i, key in enumerate(row0): - newrow[key] = row[i] - rowsdict.append(newrow) - save_hxlated_output( - json_csv_configuration["test1"], - rowsdict, - includes_header=False, - includes_hxltags=False, - output_dir=output_dir, - ) - filename = "out.csv" - assert_files_same(saverfolder / filename, output_dir / filename) - filename = "out.json" - assert_files_same(saverfolder / filename, output_dir / filename) - - save_hxlated_output( - json_csv_configuration["test2"], - rows, - includes_header=True, - includes_hxltags=True, - output_dir=output_dir, - ) - filename = "out2.csv" - assert_files_same(saverfolder / filename, output_dir / filename) - filename = "out2.json" - assert_files_same(saverfolder / filename, output_dir / filename) - - rowsdict = [] - for row in rows[1:]: - newrow = {} - for i, key in enumerate(row0): - newrow[key] = row[i] - rowsdict.append(newrow) - save_hxlated_output( - json_csv_configuration["test2"], - rowsdict, - includes_header=True, - includes_hxltags=True, - output_dir=str(output_dir), - ) - filename = "out2.csv" - assert_files_same(saverfolder / filename, output_dir / filename) - filename = "out2.json" - assert_files_same(saverfolder / filename, output_dir / filename) - - save_hxlated_output( - json_csv_configuration["test3"], - rows, - includes_header=True, - includes_hxltags=True, - output_dir=output_dir, - ) - filename = "out3.csv" - assert_files_same(saverfolder / "out.csv", output_dir / filename) - filename = "out3.json" - assert exists(output_dir / filename) is False - - save_hxlated_output( - json_csv_configuration["test4"], - rows, - includes_header=True, - includes_hxltags=True, - output_dir=output_dir, - ) - filename = "out4.csv" - assert exists(output_dir / filename) is False - filename = "out4.json" - assert_files_same(saverfolder / "out2.json", output_dir / filename) - - save_hxlated_output( - json_csv_configuration["test5"], - rowsdict, - includes_header=True, - includes_hxltags=True, - output_dir=output_dir, - ) - filename = "out5.csv" - assert_files_same(saverfolder / "out2.csv", output_dir / filename) - filename = "out5.json" - assert_files_same(saverfolder / filename, output_dir / filename) - - save_hxlated_output( - json_csv_configuration["test6"], - rowsdict, - includes_header=True, - includes_hxltags=True, - output_dir=output_dir, - today="today!", - ) - filename = "out6.csv" - assert_files_same(saverfolder / "out2.csv", output_dir / filename) - filename = "out6.json" - assert_files_same(saverfolder / filename, output_dir / filename) - - save_hxlated_output( - json_csv_configuration["test7"], - rowsdict, - includes_header=True, - includes_hxltags=True, - output_dir=output_dir, - today="today!", - ) - filename = "out7.csv" - assert_files_same(saverfolder / "out2.csv", output_dir / filename) - filename = "out7.json" - assert_files_same(saverfolder / filename, output_dir / filename) - - save_hxlated_output( - json_csv_configuration["test8"], - rowsdict, - includes_header=True, - includes_hxltags=True, - output_dir=output_dir, - today="today!", - ) - filename = "out8.csv" - assert_files_same(saverfolder / filename, output_dir / filename) - filename = "out8.json" - assert_files_same(saverfolder / filename, output_dir / filename) - def test_save_iterable_lists(self): list_of_tuples = [(1, 2, 3, "a"), (4, 5, 6, "b"), (7, 8, 9, "c")] list_of_lists = [[1, 2, 3, "a"], [4, 5, 6, "b"], [7, 8, 9, "c"]] diff --git a/tests/hdx/utilities/test_text.py b/tests/hdx/utilities/test_text.py index 42acbf4..73b1c15 100755 --- a/tests/hdx/utilities/test_text.py +++ b/tests/hdx/utilities/test_text.py @@ -148,7 +148,7 @@ def test_smart_split(self, text1, text2): "and information on the world's protected and conserved areas compiled in the " "WDPCA is used for reporting on progress towards reaching Target 3 of the " "Kunming-Montreal Global Biodiversity Framework, which calls for 30% of the " - "world’s land and waters to be effectively conserved by 2030.\n" + "world’s land and waters to be effectively conserved by 2030.\n" "\n" "Additionally, the WDPCA is used for reporting to the UN to track progress " "towards the 2030 Sustainable Development Goals, tracking of core indicators " diff --git 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